BLASTP 2.2.26 [Sep-21-2011]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= psy2244
         (73 letters)

Database: swissprot 
           539,616 sequences; 191,569,459 total letters

Searching..................................................done



>sp|Q63871|RPAB4_MOUSE DNA-directed RNA polymerases I, II, and III subunit RPABC4 OS=Mus
          musculus GN=Polr2k PE=2 SV=2
          Length = 58

 Score = 63.9 bits (154), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 28/35 (80%), Positives = 32/35 (91%)

Query: 22 ECHFENEIRPRDPIRCRECGYRIMYKKRTKRCILY 56
          ECH ENEI+ RDPIRCRECGYRIMYKKRTKR +++
Sbjct: 21 ECHTENEIKSRDPIRCRECGYRIMYKKRTKRLVVF 55


>sp|P53803|RPAB4_HUMAN DNA-directed RNA polymerases I, II, and III subunit RPABC4
          OS=Homo sapiens GN=POLR2K PE=2 SV=1
          Length = 58

 Score = 63.9 bits (154), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 28/35 (80%), Positives = 32/35 (91%)

Query: 22 ECHFENEIRPRDPIRCRECGYRIMYKKRTKRCILY 56
          ECH ENEI+ RDPIRCRECGYRIMYKKRTKR +++
Sbjct: 21 ECHTENEIKSRDPIRCRECGYRIMYKKRTKRLVVF 55


>sp|Q3ZBC0|RPAB4_BOVIN DNA-directed RNA polymerases I, II, and III subunit RPABC4 OS=Bos
          taurus GN=POLR2K PE=3 SV=1
          Length = 58

 Score = 63.9 bits (154), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 28/35 (80%), Positives = 32/35 (91%)

Query: 22 ECHFENEIRPRDPIRCRECGYRIMYKKRTKRCILY 56
          ECH ENEI+ RDPIRCRECGYRIMYKKRTKR +++
Sbjct: 21 ECHTENEIKSRDPIRCRECGYRIMYKKRTKRLVVF 55


>sp|Q54R66|RPAB4_DICDI DNA-directed RNA polymerases I, II, and III subunit rpabc4
          OS=Dictyostelium discoideum GN=polr2k PE=3 SV=1
          Length = 46

 Score = 45.4 bits (106), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 18/35 (51%), Positives = 29/35 (82%)

Query: 22 ECHFENEIRPRDPIRCRECGYRIMYKKRTKRCILY 56
          EC  E+EI+P++P++C++C +RIMYKKRT + I +
Sbjct: 9  ECGAEHEIKPKEPVKCKDCTHRIMYKKRTDKMIQF 43


>sp|P48011|RPAB4_SCHPO DNA-directed RNA polymerases I, II, and III subunit RPABC4
          OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843)
          GN=rpc10 PE=1 SV=2
          Length = 63

 Score = 43.9 bits (102), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 18/35 (51%), Positives = 26/35 (74%)

Query: 22 ECHFENEIRPRDPIRCRECGYRIMYKKRTKRCILY 56
          +C   N I+ ++ IRCRECG+R+MYK RTKR + +
Sbjct: 26 DCGARNTIQAKEVIRCRECGHRVMYKMRTKRMVQF 60


>sp|P40422|RPAB4_YEAST DNA-directed RNA polymerases I, II, and III subunit RPABC4
          OS=Saccharomyces cerevisiae (strain ATCC 204508 /
          S288c) GN=RPC10 PE=1 SV=1
          Length = 70

 Score = 37.7 bits (86), Expect = 0.018,   Method: Compositional matrix adjust.
 Identities = 14/35 (40%), Positives = 23/35 (65%)

Query: 22 ECHFENEIRPRDPIRCRECGYRIMYKKRTKRCILY 56
          EC  +  +   D +RC++CG+RI+ K RTKR + +
Sbjct: 33 ECSSKLSLSRTDAVRCKDCGHRILLKARTKRLVQF 67


>sp|Q29RQ1|CO7_BOVIN Complement component C7 OS=Bos taurus GN=C7 PE=2 SV=1
          Length = 843

 Score = 30.4 bits (67), Expect = 3.0,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 26/57 (45%)

Query: 7   LVGKCLPGDIEKYYLECHFENEIRPRDPIRCRECGYRIMYKKRTKRCILYFKPQTGG 63
           LV +     ++K YL+   E  +   DP  CR C    M   +  +C  Y KP+T G
Sbjct: 427 LVKEVPCASVKKLYLKRAIEEYLDEFDPCHCRPCHNGGMATVQGSQCQCYCKPKTSG 483


  Database: swissprot
    Posted date:  Mar 23, 2013  2:32 AM
  Number of letters in database: 191,569,459
  Number of sequences in database:  539,616
  
Lambda     K      H
   0.327    0.146    0.479 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 29,817,384
Number of Sequences: 539616
Number of extensions: 999870
Number of successful extensions: 2597
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 2589
Number of HSP's gapped (non-prelim): 8
length of query: 73
length of database: 191,569,459
effective HSP length: 45
effective length of query: 28
effective length of database: 167,286,739
effective search space: 4684028692
effective search space used: 4684028692
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (25.8 bits)